PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC9858_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 227aa    MW: 26183.8 Da    PI: 9.6957
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC9858_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.91.7e-30959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifss+gk ye++s
  RrC9858_p1  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSSRGKQYEFCS 59
                79***********************************************96 PP
2K-box93.24.4e-31931751698
       K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                 ++q+e+ kLk++++ Lqr+qR+llGedL++Ls keL++Le+qL++slk+iR+ +++++l+q+++lq ke++l e+nk+Lr +l
  RrC9858_p1  93 NSQHEYLKLKERYDALQRTQRNLLGEDLGPLSTKELESLERQLDSSLKQIRALRTQFMLDQLNDLQSKERMLAETNKTLRLRL 175
                 789****************************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.828161IPR002100Transcription factor, MADS-box
SMARTSM004321.4E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.22E-33276IPR002100Transcription factor, MADS-box
CDDcd002652.49E-43276No hitNo description
PRINTSPR004045.0E-32323IPR002100Transcription factor, MADS-box
PfamPF003191.7E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004045.0E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004045.0E-323859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.28291181IPR002487Transcription factor, K-box
PfamPF014861.5E-2593175IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 227 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSS RGKQYEFCSS  60
SSMLRTLDRY QKCNYGAPEP NVPSREALAV ELNSQHEYLK LKERYDALQR TQRNLLGEDL  120
GPLSTKELES LERQLDSSLK QIRALRTQFM LDQLNDLQSK ERMLAETNKT LRLRLADGYQ  180
MPLQLNPNPE DHHHVEYGRH QQVSGAARSW NGSRTKCEQL HVGLATL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A1e-65751781104Developmental protein SEPALLATA 3
4ox0_B1e-65751781104Developmental protein SEPALLATA 3
4ox0_C1e-65751781104Developmental protein SEPALLATA 3
4ox0_D1e-65751781104Developmental protein SEPALLATA 3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor active in inflorescence development and floral organogenesis.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679600.0KC967960.1 Brassica oleracea var. viridis SEP3 (SEP3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018480830.11e-146PREDICTED: developmental protein SEPALLATA 3 isoform X1
SwissprotO040671e-133AGL9_SINAL; Agamous-like MADS-box protein AGL9 homolog
TrEMBLA0A078GSN31e-142A0A078GSN3_BRANA; BnaA09g28040D protein
TrEMBLA0A397Y0Q11e-142A0A397Y0Q1_BRACM; Uncharacterized protein
STRINGBra032814.1-P1e-142(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62202644
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.21e-133MIKC_MADS family protein
Publications ? help Back to Top
  1. Bonhomme F,Sommer H,Bernier G,Jacqmard A
    Characterization of SaMADS D from Sinapis alba suggests a dual function of the gene: in inflorescence development and floral organogenesis.
    Plant Mol. Biol., 1997. 34(4): p. 573-82
    [PMID:9247539]